FastQC Summary

Read Totals

Library Sizes ranged between 21,174,235 and 27,509,608 reads.

Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.

FastQC Summary

Summary of FastQC flags for each parameter

Per Base Sequence Quality

Heatmap showing mean base qualities for each library

Per Sequence Quality Scores

Heatmap showing mean sequence qualities for each library

Per Base Sequence Content

Heatmap of summed base distributions along each read

Per Sequence GC Content

GC Content Heatmap normalised to theoretical GC content in the Hsapiens Genome

GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Genome

Sequence Length Distribution

Sequence Duplication Levels

Adapter Content

Universal Adapter Content

Overrepresented Summary

Total overrepresented sequences for each library

Overrepresented Sequences

## Overrepresented_sequences missing from 10_Ps2Ex3M1_WT_6month_07_07_2016_F3_86_Fem_R2.fastq.gz

Session Information

R version 4.3.2 (2023-10-31)

Platform: x86_64-pc-linux-gnu (64-bit)

locale: LC_CTYPE=en_AU.UTF-8, LC_NUMERIC=C, LC_TIME=en_AU.UTF-8, LC_COLLATE=en_AU.UTF-8, LC_MONETARY=en_AU.UTF-8, LC_MESSAGES=en_AU.UTF-8, LC_PAPER=en_AU.UTF-8, LC_NAME=C, LC_ADDRESS=C, LC_TELEPHONE=C, LC_MEASUREMENT=en_AU.UTF-8 and LC_IDENTIFICATION=C

attached base packages: stats, graphics, grDevices, utils, datasets, methods and base

other attached packages: pander(v.0.6.5), DT(v.0.30), scales(v.1.2.1), readr(v.2.1.4), dplyr(v.1.1.3), stringr(v.1.5.0), magrittr(v.2.0.3), ngsReports(v.2.4.0), tibble(v.3.2.1), patchwork(v.1.1.3), ggplot2(v.3.4.4), BiocGenerics(v.0.48.1), BiocCheck(v.1.38.0), devtools(v.2.4.5) and usethis(v.2.2.2)

loaded via a namespace (and not attached): DBI(v.1.1.3), bitops(v.1.0-7), RBGL(v.1.78.0), remotes(v.2.4.2.1), rlang(v.1.1.1), compiler(v.4.3.2), RSQLite(v.2.3.2), reshape2(v.1.4.4), callr(v.3.7.3), vctrs(v.0.6.4), profvis(v.0.3.8), pkgconfig(v.2.0.3), crayon(v.1.5.2), fastmap(v.1.1.1), dbplyr(v.2.4.0), XVector(v.0.42.0), ellipsis(v.0.3.2), labeling(v.0.4.3), utf8(v.1.2.4), biocViews(v.1.70.0), promises(v.1.2.1), rmarkdown(v.2.25), tzdb(v.0.4.0), sessioninfo(v.1.2.2), graph(v.1.80.0), ps(v.1.7.5), purrr(v.1.0.2), bit(v.4.0.5), xfun(v.0.41), zlibbioc(v.1.48.0), cachem(v.1.0.8), GenomeInfoDb(v.1.38.0), jsonlite(v.1.8.7), blob(v.1.2.4), later(v.1.3.1), parallel(v.4.3.2), prettyunits(v.1.2.0), R6(v.2.5.1), RColorBrewer(v.1.1-3), bslib(v.0.5.1), stringi(v.1.7.12), pkgload(v.1.3.3), jquerylib(v.0.1.4), lubridate(v.1.9.3), Rcpp(v.1.0.11), knitr(v.1.45), zoo(v.1.8-12), IRanges(v.2.36.0), BiocBaseUtils(v.1.4.0), httpuv(v.1.6.12), timechange(v.0.2.0), tidyselect(v.1.2.0), yaml(v.2.3.7), rstudioapi(v.0.15.0), stringdist(v.0.9.10), codetools(v.0.2-19), miniUI(v.0.1.1.1), RUnit(v.0.4.32), curl(v.5.1.0), processx(v.3.8.2), pkgbuild(v.1.4.2), plyr(v.1.8.9), lattice(v.0.22-5), Biobase(v.2.62.0), shiny(v.1.7.5.1), withr(v.2.5.2), evaluate(v.0.23), urlchecker(v.1.0.1), BiocFileCache(v.2.10.1), Biostrings(v.2.70.1), pillar(v.1.9.0), BiocManager(v.1.30.22), filelock(v.1.0.2), stats4(v.4.3.2), plotly(v.4.10.3), generics(v.0.1.3), RCurl(v.1.98-1.12), hms(v.1.1.3), S4Vectors(v.0.40.1), munsell(v.0.5.0), xtable(v.1.8-4), glue(v.1.6.2), lazyeval(v.0.2.2), tools(v.4.3.2), data.table(v.1.14.8), forcats(v.1.0.0), fs(v.1.6.3), XML(v.3.99-0.14), grid(v.4.3.2), tidyr(v.1.3.0), crosstalk(v.1.2.0), colorspace(v.2.1-0), GenomeInfoDbData(v.1.2.11), cli(v.3.6.1), fansi(v.1.0.5), viridisLite(v.0.4.2), ggdendro(v.0.1.23), gtable(v.0.3.4), sass(v.0.4.7), digest(v.0.6.33), farver(v.2.1.1), htmlwidgets(v.1.6.2), memoise(v.2.0.1), htmltools(v.0.5.6.1), lifecycle(v.1.0.3), httr(v.1.4.7), mime(v.0.12), bit64(v.4.0.5) and MASS(v.7.3-60)